158 Works

Data from: Delimitation of the new tribe Parartocarpeae (Moraceae) is supported by a 333- gene phylogeny and resolves tribal level Moraceae taxonomy

Nyree J. C. Zerega & Elliot M. Gardner
Here we describe the new tribe, Parartocarpeae, within the Moraceae (mulberry family). The tribe comprises two small Malesian genera, Parartocarpus and Hullettia, and brings the total number of Moraceae tribes to seven. Evidence for this new designation comes from a phylogeny based on 333 nuclear genes sequenced using target enrichment via hybridization (hybseq). Morphological characters that set Parartocarpeae apart from other Moraceae tribes include the combination of the following characters: lateral nonamplexicaul stipules, spirally arranged...

Data from: Network-targeted stimulation engages neurobehavioral hallmarks of age-related memory decline

Aneesha S. Nilakantan, M.-Marsel Mesulam, Sandra Weintraub, Erica L. Karp, Stephen VanHaerents & Joel L. Voss
Objective: To test whether targeting hippocampal-cortical brain networks with high-frequency transcranial magnetic stimulation (TMS) in older adults influences behavioral and neural measures characteristic of age-related memory impairment. Methods: Fifteen adults aged 64 – 80 years (mean = 72 years) completed a single-blind, sham-controlled experiment. Stimulation targets in parietal cortex were determined based on functional magnetic resonance imaging (fMRI) connectivity with the hippocampus. Recollection and recognition memory were assessed after five consecutive daily sessions of full-intensity...

Data from: Social and ecological factors alter stress physiology of Virunga mountain gorillas (Gorilla beringei beringei)

Winnie Eckardt, Tara S. Stoinski, Stacy Rosenbaum & Rachel Santymie
Living in a rapidly changing environment can alter stress physiology at the population level, with negative impacts on health, reproductive rates, and mortality that may ultimately result in species decline. Small, isolated animal populations where genetic diversity is low are at particular risks, such as endangered Virunga mountain gorillas (Gorilla beringei beringei). Along with climate change‐associated environmental shifts that are affecting the entire population, subpopulations of the Virunga gorillas have recently experienced extreme changes in...

Neural, functional, and aesthetic impacts of spatially heterogeneous flicker: a potential role of natural flicker

Satoru Suzuki
Spatially heterogeneous flicker, characterized by probabilistic and locally independent luminance modulations, abounds in nature. It is generated by flames, water surfaces, rustling leaves, and so on, and it is pleasant to the senses. It affords spatiotemporal multistability that allows sensory activation conforming to the biases of the visual system, thereby generating the perception of spontaneous motion and likely facilitating the calibration of motion detectors. One may thus hypothesize that spatially heterogeneous flicker might potentially provide...

Data from: Aversion to playing God predicts negative moral judgments of technology and science

Adam Waytz & Liane Young
This research provides, to our knowledge, the first systematic empirical investigation of people's aversion to playing God. Seven studies validate this construct and show its association with negative moral judgements of science and technology. Motivated by three nationally representative archival datasets that demonstrate this relationship, studies 1 and 2 demonstrate that people condemn scientific procedures they perceive to involve playing God. Studies 3–5 demonstrate that dispositional aversion to playing God corresponds to decreased willingness to...

Social Interaction and Pain Threshold in Virtual Reality

Andrea Stevenson Won, Swati Pandita & Kaylee Payne Kruzan
This experiment examined the effects of social presence and perceived location of a virtual environment on participants’ pain thresholds in a pre-registered, within-subjects experiment. First, we examined the effects of social interaction vs being alone in a virtual environment. Second, we compared a virtual environment representing a remote location to a replication of the lab environment. While the "location" of the virtual environment did affect social presence, such that participants reported greater social presence with...

Supplementary data 2: Disparities in COVID-19 related knowledge, attitudes, beliefs and behaviours by health literacy

Kirsten McCaffery, Rachael Dodd, Erin Cvejic, Julie Ayre, Carys Batcup, Jennifer Isautier, Tessa Copp, Carissa Bonner, Kristen Pickles, Brooke Nickel, Thomas Dakin, Samuel Cornell & Michael S Wolf
Supplementary data for Disparities in COVID-19 related knowledge, attitudes, beliefs and behaviours by health literacy. Table S1. Knowledge, attitudes, beliefs and behaviours related to COVID-19 in full analysis sample.

Midsea - Mantle Investigation of the Deep Suture between Eurasia and Africa

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Four institutions decided to populate the Mediterranean region with more BB instruments in the same time period and call our collective experiments MIDSEA. ETH put out 12 stations in 5 countries, UNSA/CNRS put 6 stations in France and italy, CIW put 5 stations in the Azores, and INGV put 2 stations in Italy. Two of the ETH stations are available at Geofon (MELI) and Inst. of Catalan Studies (POBL, autodrm) data centers, respectively. The other...

Mechanical nanolattices printed using nanocluster-based photoresists

John Kulikowski, David Doan, Qi Li, Ottman Tertuliano, Charles Zeman, Melody Wang, George Schatz & Wendy Gu
Natural materials exhibit emergent mechanical properties due to their nanoarchitected, nanocomposite structures with optimized hierarchy, anisotropy and nanoporosity. Fabrication of such complex systems is currently challenging because high-quality 3D nanoprinting is mostly limited to simple, homogenous materials. We report a strategy for the rapid nanoprinting of complex structural nanocomposites using metal nanoclusters. These ultrasmall, quantum-confined nanoclusters function as highly sensitive two-photon activators, and simultaneously serve as precursors for mechanical reinforcements and nanoscale porogens. Nanocomposites with...

Additional file 2 of Molecular, cellular and neurological consequences of infection by the neglected human pathogen Nocardia

Xingzhao Ji, Lichao Han, Weiying Zhang, Lina Sun, Shuai Xu, Xiaotong Qiu, Shihong Fan & Zhenjun Li
Additional file 2. DEGs of N. farcinica at 3 and 6 phi.

Additional file 3 of Molecular, cellular and neurological consequences of infection by the neglected human pathogen Nocardia

Xingzhao Ji, Lichao Han, Weiying Zhang, Lina Sun, Shuai Xu, Xiaotong Qiu, Shihong Fan & Zhenjun Li
Additional file 3. DEGs of A549 cells at 3 and 6 phi.

Additional file 3 of Molecular, cellular and neurological consequences of infection by the neglected human pathogen Nocardia

Xingzhao Ji, Lichao Han, Weiying Zhang, Lina Sun, Shuai Xu, Xiaotong Qiu, Shihong Fan & Zhenjun Li
Additional file 3. DEGs of A549 cells at 3 and 6 phi.

Additional file 4 of Molecular, cellular and neurological consequences of infection by the neglected human pathogen Nocardia

Xingzhao Ji, Lichao Han, Weiying Zhang, Lina Sun, Shuai Xu, Xiaotong Qiu, Shihong Fan & Zhenjun Li
Additional file 4: Video 1. [head falling on one side, body quiescent tremor and rhythmical and vertical head movements]. Video 2. [a tendency to turn in the same direction when lifted by the tail]. Video 3. [stagnation and turning backward in the same direction in unfamiliar environments, with the hind limbs open and stride length altered]. Video 4. [mice circling after infection].

The Upper Extremity Functional Scale for Prosthesis Users (UEFS-P): subscales for one and two-handed tasks

Linda Resnik, Matthew Borgia, Allen W. Heinemann, Phillip Stevens, Melissa A. Clark & Pengsheng Ni
To develop a self-report measure of activity performance for upper limb prosthesis users that quantifies outcomes by level of amputation and prosthesis type. Telephone survey of 423 adults with major upper limb amputation (ULA) who used a prosthesis. Item generation, cognitive, and pilot testing were followed by field testing. Items were categorized as one- or two-handed. Factor and Rasch analyses evaluated unidimensionality, monotonicity, item fit, differential item functioning (DIF), and reliability. Test–retest reliability was evaluated...

The synaptic marker neurogranin as a disease state biomarker in Alzheimer’s disease: a systematic review and meta-analysis

Zhibin Wang, Jianwei Yang, Wei Zhu, Yi Tang & Jianping Jia
Objective: Synaptic degeneration is the pathologic foundation of cognitive decline in the Alzheimer’s disease (AD) continuum. We aimed to determine whether cerebrospinal fluid (CSF) synaptic marker neurogranin (Ng) is a disease state or a disease stage biomarker in the AD continuum. Methods: Studies comparing CSF Ng levels among AD, mild cognitive impairment (MCI) and healthy participants were included. Studies were eligible if the correlation between CSF Ng levels and Mini-Mental Status Examination (MMSE) scores was...

Additional file 2 of Association of body mass index and inflammatory dietary pattern with breast cancer pathologic and genomic immunophenotype in the nurses’ health study

Sarah Asad, Adrienne Damicis, Yujing J. Heng, Kathryn Kananen, Katharine A. Collier, Elizabeth J. Adams, Kevin H. Kensler, Gabrielle M. Baker, Robert Wesolowski, Sagar Sardesai, Margaret Gatti-Mays, Bhuvaneswari Ramaswamy, A. Heather Eliassen, Susan E. Hankinson, Fred K. Tabung, Rulla M. Tamimi & Daniel G. Stover
Additional file 2: Supplementary Table S2. Immune Gene Expression Scores. Gene expression scores for all samples used in analyses.

Sprouty4 is epigenetically upregulated in human colorectal cancer

Alexei J. Stuckel, Shuai Zeng, Zhen Lyu, Wei Zhang, Xu Zhang, Urszula Dougherty, Reba Mustafi, Tripti Khare, Qiong Zhang, Trupti Joshi, Marc Bissonnette & Sharad Khare
Sprouty4 (SPRY4) has been frequently reported as a tumor suppressor and is therefore downregulated in various cancers. For the first time, we report that SPRY4 is epigenetically upregulated in colorectal cancer (CRC). In this study, we explored DNA methylation and hydroxymethylation levels of SPRY4 in CRC cells and patient samples and correlated these findings with mRNA and protein expression levels. Three loci within the promoter region of SPRY4 were evaluated for 5mC levels in CRC...

Additional file 20 of Quantitative analysis of transcriptome dynamics provides novel insights into developmental state transitions

Kristin Johnson, Simon Freedman, Rosemary Braun & Carole LaBonne
Additional file 20. Supplemental Table 11. List of Genes from Venn Diagrams of Genes Temporally Differentially Expressed in mesoderm and epidermal lineages corresponding with Fig. 7C.

Additional file 20 of Quantitative analysis of transcriptome dynamics provides novel insights into developmental state transitions

Kristin Johnson, Simon Freedman, Rosemary Braun & Carole LaBonne
Additional file 20. Supplemental Table 11. List of Genes from Venn Diagrams of Genes Temporally Differentially Expressed in mesoderm and epidermal lineages corresponding with Fig. 7C.

Additional file 21 of Quantitative analysis of transcriptome dynamics provides novel insights into developmental state transitions

Kristin Johnson, Simon Freedman, Rosemary Braun & Carole LaBonne
Additional file 21. Supplemental Table 12. Lists of epidermal and mesoderm GO Terms and their over represented p value in genes differentially expressed between the epidermal and mesoderm lineages corresponding with supplemental figure 7B.

Additional file 11 of Quantitative analysis of transcriptome dynamics provides novel insights into developmental state transitions

Kristin Johnson, Simon Freedman, Rosemary Braun & Carole LaBonne
Additional file 11. Supplemental Table 2. Gene Lists from all Overlapping Categories from UpSet Plots of all Transcription Factors expressed >10 TPM corresponding with Supplemental Figure 2.

Additional file 15 of Quantitative analysis of transcriptome dynamics provides novel insights into developmental state transitions

Kristin Johnson, Simon Freedman, Rosemary Braun & Carole LaBonne
Additional file 15. Supplemental Table 6. Temporal DESeq Epi Neur Venn Diagram Gene Lists corresponding with Figure 3B.

Additional file 3 of Reversal of cancer gene expression identifies repurposed drugs for diffuse intrinsic pontine glioma

Guisheng Zhao, Patrick Newbury, Yukitomo Ishi, Eugene Chekalin, Billy Zeng, Benjamin S. Glicksberg, Anita Wen, Shreya Paithankar, Takahiro Sasaki, Amreena Suri, Javad Nazarian, Michael E. Pacold, Daniel J. Brat, Theodore Nicolaides, Bin Chen & Rintaro Hashizume
Additional file 3: Table S3. Meta-signature derived from the two bulk RNAseq datasets.

Additional file 4 of MBD5 and MBD6 stabilize the BAP1 complex and promote BAP1-dependent cancer

Natsumi Tsuboyama, Aileen Patricia Szczepanski, Zibo Zhao & Lu Wang
Additional file 4: Table S3. Mass spectrometry results for GFP-tagged SBA-MBD purification from drosophila S2 cells.

Additional file 2 of A genetic map of the chromatin regulators to drug response in cancer cells

Bo Chen, Pengfei Li, Mingyue Liu, Kaidong Liu, Min Zou, Yiding Geng, Shuping Zhuang, Huanhuan Xu, Linzhu Wang, Tingting Chen, Yawei Li, Zhangxiang Zhao, Lishuang Qi & Yunyan Gu
Additional file 2: Table S3. CRs genetic interactions related to drug response in cancers.

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Affiliations

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